Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014687.1 Corchorus olitorius cultivar O-4 contig14720, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20218
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Found at i:7933 original size:11 final size:11
Alignment explanation
Indices: 7915--7947 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
7905 AATGTCAACC
7915 ACTCCATTTTG
1 ACTCCATTTTG
*
7926 ATTCCATTTTG
1 ACTCCATTTTG
7937 ACTCCATTTTG
1 ACTCCATTTTG
7948 GGTTGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.09, T:0.48
Consensus pattern (11 bp):
ACTCCATTTTG
Found at i:9971 original size:21 final size:22
Alignment explanation
Indices: 9931--9971 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
9921 GACAAACTTG
*
9931 TAACCCGAATAACCCGAGAAGA
1 TAACCCGAATAACCCAAGAAGA
*
9953 TAACCCG-ATGACCCAAGAA
1 TAACCCGAATAACCCAAGAA
9972 TATTATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.44, C:0.29, G:0.17, T:0.10
Consensus pattern (22 bp):
TAACCCGAATAACCCAAGAAGA
Found at i:12197 original size:334 final size:330
Alignment explanation
Indices: 11471--12206 Score: 770
Period size: 334 Copynumber: 2.2 Consensus size: 330
11461 TTTTTTGGCA
* * * * * * *
11471 AAAATACTCATAAAATATATATAATTCAATGCCAAAAAGACTGGAGTATTTTTCACACTTTTAAT
1 AAAATACTCATAAAAAATATATAATTCAATGCCAAAAAGAATGAAGGACTTTTCACGCTTCTAAT
* *
11536 ATC--ATTTTTCATATTTTTCTGAATTAAAATCTAATTAAATCAAAACAAGATTCAGATGCACGT
66 ATCGTTTTTTTCATATTTTTCTAAATTAAAATCTAATTAAATCAAAACAAGATTCAGATGCACGT
*
11599 AAAAACAAATCCTTAAATCCAATGTGGCTGAGATTTGATTACATGAATAAAGATATTTCAAGGAG
131 AAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGATTACATGAATAAAGATATTTCAAGGAG
** * ** * *
11664 TCTTGGCGCAAAAAATCATGCAAAACAAAGTTGTGGCCCCGGGATGTGTTTTTAGCCAAAACCGT
196 TCTTGGCGCAAAAAATCATGCAAAACAAACCTGAGGCCCCGAAACGCGTTTTTAGCCAAAACCGT
*
11729 GATGGTTAGTACACGATTTCGGCTAAAATTTTGCAAAAGTTGATCAAAAAAAATTTTCCTCAATT
261 GATGG-T-GTACACGATTTCGGCTAAAATTTTGCAAAAATTGATCAAAAAAAATTTTCCTCAATT
* *
11794 TCTTGCG
324 TCTAGCC
* * ** * * *
11801 AAAATAATCAT-ACAAATATATAATTCAACACCAAAAAAAATGAAAGCCTTTTTCACGCTTCTAA
1 AAAATACTCATAAAAAATATATAATTCAATGCCAAAAAGAATGAAGGAC-TTTTCACGCTTCTAA
* ** * * * *
11865 TATCGTTTTTTTCTATTTTATTTCTAAATTAATTTCTGATTAAATCGAAACAAGATTTAGATGCT
65 TATCGTTTTTTTC-ATATT-TTTCTAAATTAAAATCTAATTAAATCAAAACAAGATTCAGATGCA
* * * * * *
11930 CGTAAAAATAAATTCTTAAATATAATGTGGCTGAGATTTGGTTACATGAATAAAAATATATTTTA
128 CGTAAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGATTACATGAAT--AAAGATATTTCA
* ** *
11995 AGGAGTCTTGGTGTC-AAAAATCATGCAAAACTGACCTGAGGCCCTGAAACGCGTTTTTAGCCAA
191 AGGAGTCTTGGCG-CAAAAAATCATGCAAAACAAACCTGAGGCCCCGAAACGCGTTTTTAGCC--
* * *** *
12059 AAAAACCGTGAT-G-GTACACGATTTCGGTTAAAGTTTTGCAAAAATTGA-CCCTAAATATTTAT
253 -AAAACCGTGATGGTGTACACGATTTCGGCTAAAATTTTGCAAAAATTGATCAAAAAAAATTT-T
12121 -CTCAAATTT-TAGCC
316 CCTC-AATTTCTAGCC
* * * * * * *
12135 ACAATACTCGTAAAAAATATATAATTCAATGGCAAAAAGATTGAAGGGCTTCTCATGCTTCTAAT
1 AAAATACTCATAAAAAATATATAATTCAATGCCAAAAAGAATGAAGGACTTTTCACGCTTCTAAT
*
12200 ATTGTTT
66 ATCGTTT
12207 GTTTAAAAAA
Statistics
Matches: 328, Mismatches: 64, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
329 26 0.08
330 27 0.08
332 6 0.02
333 4 0.01
334 126 0.38
335 67 0.20
336 59 0.18
337 1 0.00
338 1 0.00
339 11 0.03
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (330 bp):
AAAATACTCATAAAAAATATATAATTCAATGCCAAAAAGAATGAAGGACTTTTCACGCTTCTAAT
ATCGTTTTTTTCATATTTTTCTAAATTAAAATCTAATTAAATCAAAACAAGATTCAGATGCACGT
AAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGATTACATGAATAAAGATATTTCAAGGAG
TCTTGGCGCAAAAAATCATGCAAAACAAACCTGAGGCCCCGAAACGCGTTTTTAGCCAAAACCGT
GATGGTGTACACGATTTCGGCTAAAATTTTGCAAAAATTGATCAAAAAAAATTTTCCTCAATTTC
TAGCC
Found at i:12822 original size:40 final size:42
Alignment explanation
Indices: 12733--12823 Score: 98
Period size: 44 Copynumber: 2.2 Consensus size: 42
12723 CTTCACGAAT
* **
12733 AATAATAATTCTCCACATACGTGGATCTTCTTTCAATCTTCTTT
1 AATAATAATCCTCCACATACGTGGA--TTCTTTCAATCTTCTAA
*
12777 GATAATAATCCTCCACATACGTGGA-TC-TTCAATCTT-TGAA
1 AATAATAATCCTCCACATACGTGGATTCTTTCAATCTTCT-AA
12817 AATAATA
1 AATAATA
12824 CGTGGATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
39 1 0.02
40 15 0.37
41 2 0.05
44 23 0.56
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (42 bp):
AATAATAATCCTCCACATACGTGGATTCTTTCAATCTTCTAA
Found at i:13907 original size:318 final size:317
Alignment explanation
Indices: 13352--14636 Score: 1249
Period size: 335 Copynumber: 4.0 Consensus size: 317
13342 CATGATTTCG
* * * *
13352 GCTAAAATTTTGC-AAAAATAGACCCGAAATATTTTTCCTCAATTTTTAGCCACAATACTCATAA
1 GCTAAAATTTTGCAAAAAATGGA-CCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAA
* ** *
13416 AATATATATAATTCAACTCCAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTCCATA
65 AATATATATAATTTAACGACAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATA
* * *
13481 TTTTTCTGAATTAATTTTTAATTAAATCAAAACAAGATTCAGATGCTCGTAAAAACAAATCATTA
130 TTTTTCTGAATTAATTTATAATTAAATCAAAACAAGATTCAGATGCTCATAAAAA-AAATCCTTA
* * * *
13546 AATTCAAATGTGGCTGAGATTTGATTGGATGAGTATAGATATTTCAAGGAGTATCAGCGCCAAAA
194 AA-TCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCAGCGCCAAAA
* * *
13611 ATCATGCAAAACTAAGTCGAGGCCCCGAAATGCGTTTTTAGCC-AAAACCCGCGATTCCA
258 ATCATGCAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAGCCAAAAACACGCGATTCCA
* * *
13670 GCTTAAATTTTGCAGAAAAT-GACATGACAA-ATTTTTCCTCAATTTTTAGCTAAAATACTCATA
1 GCTAAAATTTTGCAAAAAATGGAC-CGA-AAGATTTTTCCTCAATTTTTAGCTAAAATACTCATA
* *
13733 AAATAAATTTATAATTTAACGACAAAAAGATTGGATGACTTTTCACGCTTTTAATATCGTTTTTC
64 AAAT--ATATATAATTTAACGACAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTC
*
13798 ATATTTTT-TTAATTAATTTATAATTAAATCAAAACAAGATTCAGATGCTCATAAAAACAAATCC
127 ATATTTTTCTGAATTAATTTATAATTAAATCAAAACAAGATTCAGATGCTCATAAAAA-AAATCC
* * * * * *
13862 TTAAATGCAACGTGGCTAAGATTTTATTAGATGAATATAGATATTTCAAGGAGTCTTAACGCCAA
191 TTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCAGCGCCAA
* * *
13927 AAATCATGCAAAACTGAG-CTGATGCCCCGAAACGCGTTTTTAGCCAAAAAAAAAATCGTGATGG
256 AAATCATGCAAAACTGAGTC-GAGGCCCCGAAACGCGTTTTTAGCC---AAAAACA-CGCGA---
13991 TTAATACACGA
313 -T--T-C-C-A
** * * * * *
14002 TTTTGACTAAAATTTTG-AAAAAAAAGATCCGAAAAATTTGTCCTCAATTTTTGGATAAAATAAT
1 ----G-CTAAAATTTTGCAAAAAATGGA-CCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACT
* *
14066 CATGAAATATATATAATTTAGC-ACTAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTT
60 CATAAAATATATATAATTTAACGAC-AAAAAGATTGGAGGACTTTTCACGCTTTTAATATCG-TT
* * * *
14130 TTTCATATTTTT-TGAATTAATTTCTAATTAAATCGAAACAAAATTCAGATGGTCATAAAAAAAA
123 TTTCATATTTTTCTGAATTAATTTATAATTAAATCAAAACAAGATTCAGATGCTCATAAAAAAAA
* * * * * * **
14194 TTCTTAAATCCAATGTAGCTGAGATTTGATTAAATGAATATGGATATCTAAAGGAGTCTTGGCGC
188 TCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCAGCGC
* * * *
14259 CAAAAATCATGCAACACTGAGTCGGGGCCCCGGAACGCTTTTTTAGCCAAAAATTGTGATGGTTA
253 CAAAAATCATGCAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAGCC--AAA-----A-----A
* * *
14324 CTACACGATTTCG
306 C-ACGCGATTCCA
* * *
14337 GCTAAAATTTTGTAAAAAATGGGTCCGAAAGATATTTCCTCAATTTTT-GCCT-AAATACTCATA
1 GCTAAAATTTTGCAAAAAAT-GGACCGAAAGATTTTTCCTCAATTTTTAG-CTAAAATACTCATA
* * ** *
14400 AAA-ATATAT-ATTTCAACGCCAAAAAGATTGAAGGGTTTTTGACG-TTTCTAATATCGTTTTT-
64 AAATATATATAATTT-AACGACAAAAAGATTGGAGGACTTTTCACGCTTT-TAATATCGTTTTTC
* * * *
14461 -T-TTTTTCTGAATTAATTTATAATTAAATCGAAACAAGATTAAGATGCTCGTAAAAAAAAACCT
127 ATATTTTTCTGAATTAATTTATAATTAAATCAAAACAAGATTCAGATGCTCATAAAAAAAATCCT
* * * * * *
14524 TAAATCCTATGTGGTTGAGATTTGATTAGATGAATATAGATATTTCAAGTAGTCTCGGAGTCAAA
192 TAAATCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCAGCGCCAAA
* * * *
14589 AATCATGCAAAATTGAGGT-G-GGTCCCCGGAACGCATTTTTAGTCAAAA
257 AATCATGCAAAACTGA-GTCGAGG-CCCCGAAACGCGTTTTTAGCCAAAA
14637 CCCGTTATGT
Statistics
Matches: 809, Mismatches: 107, Indels: 101
0.80 0.11 0.10
Matches are distributed among these distances:
317 2 0.00
318 141 0.17
319 65 0.08
320 61 0.08
322 4 0.00
323 4 0.00
324 3 0.00
325 7 0.01
326 138 0.17
327 3 0.00
328 12 0.01
329 37 0.05
330 26 0.03
331 30 0.04
332 2 0.00
334 7 0.01
335 144 0.18
336 68 0.08
337 46 0.06
338 2 0.00
339 1 0.00
340 1 0.00
344 4 0.00
345 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (317 bp):
GCTAAAATTTTGCAAAAAATGGACCGAAAGATTTTTCCTCAATTTTTAGCTAAAATACTCATAAA
ATATATATAATTTAACGACAAAAAGATTGGAGGACTTTTCACGCTTTTAATATCGTTTTTCATAT
TTTTCTGAATTAATTTATAATTAAATCAAAACAAGATTCAGATGCTCATAAAAAAAATCCTTAAA
TCCAATGTGGCTGAGATTTGATTAGATGAATATAGATATTTCAAGGAGTCTCAGCGCCAAAAATC
ATGCAAAACTGAGTCGAGGCCCCGAAACGCGTTTTTAGCCAAAAACACGCGATTCCA
Found at i:14462 original size:655 final size:642
Alignment explanation
Indices: 13202--14636 Score: 1479
Period size: 655 Copynumber: 2.2 Consensus size: 642
13192 CTACATCTCG
* * * * * *
13202 TAAAAACAAATCCTTAAATCTAATGTGGCTAAGATTAGGTTATATGACTATAGATTTTTAAAGGA
1 TAAAAACAAATCCTTAAATC-AATGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGA
* * * * * *
13267 GTTTTGCCACAAAAAATCATACAAAACTGA-CATGGAACCCCGGAAA-GCGTTTTTAGCC----A
65 GTCTTGACGCCAAAAATCATGCAAAACTGAGC-T-GAGCCCC-GAAACGCGTTTTTAGCCAAAAA
* * * * * * *
13326 AAAAACCGTGGTGATACATGATTTCGGCTAAAATTTTGCAAAAATAGACCCGAAATATTTTTCCT
127 AAAAACCGTGGTAATACACGATTTCGACTAAAATTTTGAAAAAAAAGACCCGAAAAATTTGTCCT
* * * *
13391 CAATTTTTAGCCACAATACTCATAAAATATATATAATTCAACTCCAAAAAGATTGGAGGACTTTT
192 CAATTTTTAGACAAAATAATCATAAAATATATATAATTCAACACCAAAAAGATTGGAGGACTTTT
* *
13456 CACGCTTTTAATATCGTTTTCCATATTTTTCTGAATTAATTTTTAATTAAATCAAAACAAGATTC
257 CACGCTTTTAATATCGTTTTCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAAATTC
* * ** *
13521 AGATGCTCGTAAAAACAAATCATTAAATTCAAATGTGGCTGAGATTTGATTGGATGAGTATAGAT
322 AGATGCTCATAAAAACAAATCATTAAATTCAAATGTAGCTGAGATTTGATTAAATGAATATAGAT
* * *
13586 ATTTCAAGGAGTATCAGCGCCAAAAATCATGCAAAACTAAGTCGAGGCCCCGAAATGCGTTTTTA
387 ATCTAAAGGAGTATCAGCGCCAAAAATCATGCAAAACTAAGTCGAGGCCCCGAAACGCGTTTTTA
* * * * * *
13651 GCCAAAACCCGCGATTCCAGCTTAAATTTTGCAGAAAATGACATGACAAATTTTTCCTCAATTTT
452 GCCAAAACACACGATTCCAGCTAAAATTTTGCAAAAAATGACACGACAAATATTTCCTCAATTTT
* * *
13716 TAGCTAAAATACTCATAAAATAAATTTATAATTTAACGACAAAAAGATTGGATGACTTTTCACGC
517 TAGCTAAAATACTCAT-AAATAAATATATAATTTAACGACAAAAAGATTGAAGGACTTTTCACGC
* * *
13781 TTTTAATATCGTTTTTCATATTTTTTTAATTAATTTATAATTAAATCAAAACAAGATTCAGATGC
581 TTTTAATATCG---TT--T-TTTTCTGAATTAATTTATAATTAAATCAAAACAAGATTAAGATGC
13846 TCA
640 TCA
* *
13849 TAAAAACAAATCCTTAAATGCAACGTGGCTAAGATTTTATTAGATGAATATAGATATTTCAAGGA
1 TAAAAACAAATCCTTAAAT-CAATGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGA
*
13914 GTCTTAACGCCAAAAATCATGCAAAACTGAGCTGATGCCCCGAAACGCGTTTTTAGCCAAAAAAA
65 GTCTTGACGCCAAAAATCATGCAAAACTGAGCTGA-GCCCCGAAACGCGTTTTTAGCCAAAAAAA
* * *
13979 AAATCGTGATGGTTAATACACGATTTTGACTAAAATTTTGAAAAAAAAGATCCGAAAAATTTGTC
129 AAA-C-CG-TGG-TAATACACGATTTCGACTAAAATTTTGAAAAAAAAGACCCGAAAAATTTGTC
* * * * * *
14044 CTCAATTTTTGGATAAAATAATCATGAAATATATATAATTTAGCACTAAAAAGATTGGAGGACTT
190 CTCAATTTTTAGACAAAATAATCATAAAATATATATAATTCAACACCAAAAAGATTGGAGGACTT
* *
14109 TTCACGCTTTTAATATCGTTTTTTCATATTTTT-TGAATTAATTTCTAATTAAATCGAAACAAAA
255 TTCACGCTTTTAATATCG-TTTTCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAAA
* *
14173 TTCAGATGGTCATAAAAA-AAATTC-TTAAA-TCCAATGTAGCTGAGATTTGATTAAATGAATAT
319 TTCAGATGCTCATAAAAACAAA-TCATTAAATTCAAATGTAGCTGAGATTTGATTAAATGAATAT
* * ** * * * * *
14235 GGATATCTAAAGGAGTCTTGGCGCCAAAAATCATGCAACACTGAGTCGGGGCCCCGGAACGCTTT
383 AGATATCTAAAGGAGTATCAGCGCCAAAAATCATGCAAAACTAAGTCGAGGCCCCGAAACGCGTT
* * * *
14300 TTTAGCCAAAAATTGTGATGGTTACTACACGATTTCGGCTAAAATTTTGTAAAAAATGGGTC-CG
448 TTTAGCC---AA-----A-----AC-ACACGATTCCAGCTAAAATTTTGCAAAAAAT--GACACG
*
14364 A-AAGATATTTCCTCAATTTTT-GCCT-AAATACTCAT-AA-AAATATAT-ATTTCAACGCCAAA
497 ACAA-ATATTTCCTCAATTTTTAG-CTAAAATACTCATAAATAAATATATAATTT-AACGACAAA
** *
14423 AAGATTGAAGGGTTTTTGACG-TTTCTAATATCGTTTTTTTTTTTCTGAATTAATTTATAATTAA
559 AAGATTGAAGGACTTTTCACGCTTT-TAATATCG----TTTTTTTCTGAATTAATTTATAATTAA
* *
14487 ATCGAAACAAGATTAAGATGCTCG
619 ATCAAAACAAGATTAAGATGCTCA
* * * * *
14511 TAAAAA-AAAACCTTAAATCCTATGTGGTTGAGATTTGATTAGATGAATATAGATATTTCAAGTA
1 TAAAAACAAATCCTTAAAT-CAATGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGA
* * * * * * * *
14575 GTCTCGGA-GTCAAAAATCATGCAAAATTGAGGTGGGTCCCCGGAACGCATTTTTAGTCAAAA
65 GTCT-TGACGCCAAAAATCATGCAAAACTGAGCTGAG-CCCCGAAACGCGTTTTTAGCCAAAA
14637 CCCGTTATGT
Statistics
Matches: 654, Mismatches: 97, Indels: 60
0.81 0.12 0.07
Matches are distributed among these distances:
646 6 0.01
647 96 0.15
648 2 0.00
651 6 0.01
652 1 0.00
653 89 0.14
654 11 0.02
655 162 0.25
656 15 0.02
660 1 0.00
661 100 0.15
662 50 0.08
663 8 0.01
664 39 0.06
665 7 0.01
666 2 0.00
667 37 0.06
668 20 0.03
669 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (642 bp):
TAAAAACAAATCCTTAAATCAATGTGGCTAAGATTTGATTAGATGAATATAGATATTTCAAGGAG
TCTTGACGCCAAAAATCATGCAAAACTGAGCTGAGCCCCGAAACGCGTTTTTAGCCAAAAAAAAA
ACCGTGGTAATACACGATTTCGACTAAAATTTTGAAAAAAAAGACCCGAAAAATTTGTCCTCAAT
TTTTAGACAAAATAATCATAAAATATATATAATTCAACACCAAAAAGATTGGAGGACTTTTCACG
CTTTTAATATCGTTTTCCATATTTTTCTGAATTAATTTCTAATTAAATCAAAACAAAATTCAGAT
GCTCATAAAAACAAATCATTAAATTCAAATGTAGCTGAGATTTGATTAAATGAATATAGATATCT
AAAGGAGTATCAGCGCCAAAAATCATGCAAAACTAAGTCGAGGCCCCGAAACGCGTTTTTAGCCA
AAACACACGATTCCAGCTAAAATTTTGCAAAAAATGACACGACAAATATTTCCTCAATTTTTAGC
TAAAATACTCATAAATAAATATATAATTTAACGACAAAAAGATTGAAGGACTTTTCACGCTTTTA
ATATCGTTTTTTTCTGAATTAATTTATAATTAAATCAAAACAAGATTAAGATGCTCA
Found at i:14545 original size:326 final size:328
Alignment explanation
Indices: 13700--14890 Score: 1168
Period size: 335 Copynumber: 3.6 Consensus size: 328
13690 GACATGACAA
* * * *
13700 ATTTTTCCTCAATTTTTAGCTAAAATACTCATAAAATAAATTTATAATTTAACGACAAAAAGATT
1 ATTTCTCCTCAATTTTTGGCTAAAATACTCAT-AAA-AAATATATAATTTAACGCCAAAAAGATT
* * *
13765 GGATGACTTTTCACGCTTTTAATATCGTTTTTCATATTTTT-TTAATTAATTTATAATTAAATCA
64 GGAGGACTTTTCACGCTTTTAATATCGTTTTT-ATATTTTTCTGAATTAATTTATAATTAAATCG
* * * * *
13829 AAACAAGATTCAGATGCTCATAAAAACAAATCCTTAAATGCAACGTGGCTAAGATTTTATTAGAT
128 AAACAAGATTAAGATGCTCATAAAAA-AAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGAT
** ** *
13894 GAATATAGATATTTCAAGGAGTCTTAACGCCAAAAATCATGCAAAACTGAG-CTGATGCCCCGAA
192 GAATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTC-GGGGCCCCGGA
* * * *
13958 ACGCGTTTTTAGCCAAAAAAAAAATCGTGATGGTTAATACACGATTTTGACTAAAATTTTGAAAA
256 ACGCATTTTTAGCC-----AAAAATTGTGATGGTTAATACACGATTTCGGCTAAAATTTTG-AAA
* * *
14023 AAAAGATCCGAAAA
315 AAATGGTCCGAAAG
* * * * * * * *
14037 ATTTGTCCTCAATTTTTGGATAAAATAATCATGAAATATATATAATTTAGCACTAAAAAGATTGG
1 ATTTCTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTTAACGCCAAAAAGATTGG
*
14102 AGGACTTTTCACGCTTTTAATATCGTTTTTTCATATTTTT-TGAATTAATTTCTAATTAAATCGA
66 AGGACTTTTCACGCTTTTAATATCG-TTTTT-ATATTTTTCTGAATTAATTTATAATTAAATCGA
* * * * * *
14166 AACAAAATTCAGATGGTCATAAAAAAAATTCTTAAATCCAATGTAGCTGAGATTTGATTAAATGA
129 AACAAGATTAAGATGCTCATAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGA
* * * *
14231 ATATGGATATCTAAAGGAGTCTTGGCGCCAAAAATCATGCAACACTGAGTCGGGGCCCCGGAACG
194 ATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGGAACG
* *
14296 CTTTTTTAGCCAAAAATTGTGATGGTTACTACACGATTTCGGCTAAAATTTTGTAAAAAATGGGT
259 CATTTTTAGCCAAAAATTGTGATGGTTAATACACGATTTCGGCTAAAATTTTG-AAAAAAT-GGT
14361 CCGAAAG
322 CCGAAAG
*
14368 ATATT-TCCTCAATTTTTGCCT-AAATACTCAT-AAAAATATAT-ATTTCAACGCCAAAAAGATT
1 AT-TTCTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTT-AACGCCAAAAAGATT
* ** *
14429 GAAGGGTTTTTGACG-TTTCTAATATCGTTTTT-T-TTTTTCTGAATTAATTTATAATTAAATCG
64 GGAGGACTTTTCACGCTTT-TAATATCGTTTTTATATTTTTCTGAATTAATTTATAATTAAATCG
* * * *
14491 AAACAAGATTAAGATGCTCGTAAAAAAAAACCTTAAATCCTATGTGGTTGAGATTTGATTAGATG
128 AAACAAGATTAAGATGCTCATAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATG
* * * * * *
14556 AATATAGATATTTCAAGTAGTCTCGGAGTCAAAAATCATGCAAAATTGAGGT-GGGTCCCCGGAA
193 AATATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGA-GTCGGGGCCCCGGAA
* * ** * *
14620 CGCATTTTTAGTCAAAACCCGTTATGTTTAGTTAGTACTTAGTACACGATTTCGGCTAAATTTTT
257 CGCATTTTTAGCCAAAA------A---TT-GTGA-TGGTTAATACACGATTTCGGCTAAAATTTT
* * *
14685 GCAAAAATTGACACGAAAG
311 GAAAAAATGGTC-CGAAAG
* * * *
14704 ATTTCTCATTAATTTTTGGCTGAAAA-ACTCGT-AAAAATATATAATTCAACGCCAAAAAAGATT
1 ATTTCTCCTCAATTTTTGGCT-AAAATACTCATAAAAAATATATAATTTAACGCC-AAAAAGATT
* * * *
14767 GG-GGGCCTTTCACGCTTTTAATATCGCATTTCTTAT-TTTTTCTAAATTAATTTCTAATTAAAT
64 GGAGGACTTTTCACGCTTTTAATATCG--TTT-TTATATTTTTCTGAATTAATTTATAATTAAAT
* * *
14830 CGAAACAAGATTCAA-ATG--C-T---ACAAAT-CTTAAATGCAATGTGGCTGAGATTTGGTTAG
126 CGAAACAAGATT-AAGATGCTCATAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAG
14887 ATGA
190 ATGA
14891 TGTAAAGTAT
Statistics
Matches: 722, Mismatches: 101, Indels: 65
0.81 0.11 0.07
Matches are distributed among these distances:
325 5 0.01
326 144 0.20
327 2 0.00
328 12 0.02
329 40 0.06
330 53 0.07
331 24 0.03
332 3 0.00
334 31 0.04
335 155 0.21
336 91 0.13
337 93 0.13
338 20 0.03
339 4 0.01
340 2 0.00
341 41 0.06
342 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (328 bp):
ATTTCTCCTCAATTTTTGGCTAAAATACTCATAAAAAATATATAATTTAACGCCAAAAAGATTGG
AGGACTTTTCACGCTTTTAATATCGTTTTTATATTTTTCTGAATTAATTTATAATTAAATCGAAA
CAAGATTAAGATGCTCATAAAAAAAATCCTTAAATCCAATGTGGCTGAGATTTGATTAGATGAAT
ATAGATATTTCAAGGAGTCTTGGCGCCAAAAATCATGCAAAACTGAGTCGGGGCCCCGGAACGCA
TTTTTAGCCAAAAATTGTGATGGTTAATACACGATTTCGGCTAAAATTTTGAAAAAATGGTCCGA
AAG
Found at i:15531 original size:3 final size:3
Alignment explanation
Indices: 15523--15583 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
15513 TTTATATAGT
15523 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15571 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
15584 GATAAGATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Done.